static int Main(string[] args)
{
if (args.Length != 1)
{
if (args.Length < 1)
{
Console.WriteLine("No run folder");
}
else
{
Console.WriteLine("Too many arguments");
}
return(1);
}
// @ [Reading only metrics required by the Imaging Tab]
run_metrics metrics = new run_metrics();
uchar_vector interopsToLoad = new uchar_vector();
// Load only the metrics required by imaging table
c_csharp_table.list_imaging_table_metrics_to_load(interopsToLoad);
metrics.read(args[0], interopsToLoad);
// @ [Reading only metrics required by the Imaging Tab]
imaging_column_vector columnVector = new imaging_column_vector();
map_id_offset rowOffsets = new map_id_offset();
c_csharp_table.create_imaging_table_columns(metrics, columnVector);
c_csharp_table.count_table_rows(metrics, rowOffsets);
int rowCount = rowOffsets.Count;
int columnCount = (int)c_csharp_table.count_table_columns(columnVector);
float[] data = new float[rowCount * columnCount];
c_csharp_table.populate_imaging_table_data(metrics, columnVector, rowOffsets, data, (uint)data.Length);
for (int rowIndex = 0; rowIndex < rowCount; ++rowIndex)
{
for (int groupIndex = 0; groupIndex < columnVector.Count; ++groupIndex)
{
if (columnVector[groupIndex].has_children())
{
for (int subColumnIndex = 0; subColumnIndex < columnVector[groupIndex].subcolumns().Count; ++subColumnIndex)
{
int columnIndex = (int)(columnVector[groupIndex].offset() + subColumnIndex);
Console.Write("{0},", data[rowIndex * columnCount + columnIndex]);
}
}
else
{
int columnIndex = (int)(columnVector[groupIndex].offset());
Console.Write("{0},", data[rowIndex * columnCount + columnIndex]);
}
}
Console.WriteLine();
}
return(0);
}
public void PopulateFloatBackedTableTest()
{
int[] tmp = new int[] {
2, 38
, 7, 0, 90, 4, 1, 0, -12, -56, 15, 64, -98, 35, 12, 64, 0, 0, 0, 0, 0, 0, 0, 0, 46, 1, 17, 1, 0, 0, 0, 0, 96, -41, -104, 36, 122, -86, -46, -120
, 7, 0, -66, 4, 1, 0, 96, -43, 14, 64, -63, 49, 13, 64, 0, 0, 0, 0, 0, 0, 0, 0, 56, 1, 17, 1, 0, 0, 0, 0, 112, 125, 77, 38, 122, -86, -46, -120
, 7, 0, 66, 8, 1, 0, 74, -68, 6, 64, -118, -7, 8, 64, 0, 0, 0, 0, 0, 0, 0, 0, 93, 1, 46, 1, 0, 0, 0, 0, -47, -104, 2, 40, 122, -86, -46, -120
};
byte[] expected_binary_data = new byte[tmp.Length];
for (int i = 0; i < expected_binary_data.Length; i++)
{
expected_binary_data[i] = (byte)tmp[i];
}
run_metrics run = new run_metrics();
c_csharp_comm.read_interop_from_buffer(expected_binary_data, (uint)expected_binary_data.Length, run.extraction_metric_set());
var run_param = new parameters();
Assert.AreEqual(run_param.version(), 0);
Assert.AreEqual(run.extraction_metric_set().max_cycle(), 1);
read_info_vector reads = new read_info_vector();
reads.Add(new read_info(1, 1, 26));
reads.Add(new read_info(2, 27, 76));
run.run_info(new info(
"",
"",
1,
new flowcell_layout(2, 2, 2, 16),
new string_vector(),
new image_dimensions(),
reads
));
run.legacy_channel_update(instrument_type.HiSeq);
imaging_column_vector columnVector = new imaging_column_vector();
c_csharp_table.create_imaging_table_columns(run, columnVector);
map_id_offset rowOffsets = new map_id_offset();
c_csharp_table.count_table_rows(run, rowOffsets);
uint columnCount = c_csharp_table.count_table_columns(columnVector);
var data = new float[rowOffsets.Count * columnCount];
c_csharp_table.populate_imaging_table_data(run, columnVector, rowOffsets, data, (uint)data.Length);
Assert.AreEqual(rowOffsets.Count, 3);
Assert.AreEqual(data[0], 7);
}
public void PopulateFloatBackedTableTest()
{
int[] tmp = new int[]{
2,38
,7,0,90,4,1,0,-12,-56,15,64,-98,35,12,64,0,0,0,0,0,0,0,0,46,1,17,1,0,0,0,0,96,-41,-104,36,122,-86,-46,-120
,7,0,-66,4,1,0,96,-43,14,64,-63,49,13,64,0,0,0,0,0,0,0,0,56,1,17,1,0,0,0,0,112,125,77,38,122,-86,-46,-120
,7,0,66,8,1,0,74,-68,6,64,-118,-7,8,64,0,0,0,0,0,0,0,0,93,1,46,1,0,0,0,0,-47,-104,2,40,122,-86,-46,-120
};
byte[] expected_binary_data = new byte[tmp.Length];
for(int i=0;i<expected_binary_data.Length;i++) expected_binary_data[i] = (byte)tmp[i];
run_metrics run = new run_metrics();
c_csharp_comm.read_interop_from_buffer(expected_binary_data, (uint)expected_binary_data.Length, run.extraction_metric_set());
var run_param = new parameters();
Assert.AreEqual(run_param.version(), 0);
Assert.AreEqual(run.extraction_metric_set().MaxCycle, 1);
read_info_vector reads = new read_info_vector();
reads.Add(new read_info(1, 1, 26));
reads.Add(new read_info(2, 27, 76));
run.run_info(new info(
"",
"",
1,
new flowcell_layout(2, 2, 2, 16),
new string_vector(),
new image_dimensions(),
reads
));
run.legacy_channel_update(instrument_type.HiSeq);
imaging_column_vector columnVector = new imaging_column_vector();
c_csharp_imaging.create_imaging_table_columns(run, columnVector);
map_id_offset rowOffsets = new map_id_offset();
c_csharp_imaging.count_table_rows(run, rowOffsets);
uint columnCount = c_csharp_imaging.count_table_columns(columnVector);
var data = new float[rowOffsets.Count*columnCount];
c_csharp_imaging.populate_imaging_table_data(run, columnVector, rowOffsets, data, (uint)data.Length);
Assert.AreEqual(rowOffsets.Count, 3);
Assert.AreEqual(data[0], 7);
}
